LINC02426 (long intergenic non-protein coding RNA 2426) - Rat Genome Database

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Pathways
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Gene: LINC02426 (long intergenic non-protein coding RNA 2426) Homo sapiens
Analyze
Symbol: LINC02426
Name: long intergenic non-protein coding RNA 2426
RGD ID: 12799230
HGNC Page HGNC:53357
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381281,953,719 - 81,993,133 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1281,953,719 - 81,993,136 (+)EnsemblGRCh38hg38GRCh38
GRCh371282,347,498 - 82,386,912 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map12q21.31NCBI
HuRef1279,404,217 - 79,443,645 (+)NCBIHuRef
CHM1_11282,313,373 - 82,352,798 (+)NCBICHM1_1
T2T-CHM13v2.01281,933,204 - 81,972,616 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:12477932  


Genomics

Variants

.
Variants in LINC02426
3 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 12q21.31(chr12:80266605-85253555)x1 copy number loss See cases [RCV000051315] Chr12:80266605..85253555 [GRCh38]
Chr12:80660385..85647333 [GRCh37]
Chr12:79184516..84171464 [NCBI36]
Chr12:12q21.31		 pathogenic
GRCh38/hg38 12q21.2-21.31(chr12:77564757-85370822)x3 copy number gain See cases [RCV000053684] Chr12:77564757..85370822 [GRCh38]
Chr12:77958537..85764600 [GRCh37]
Chr12:76482668..84288731 [NCBI36]
Chr12:12q21.2-21.31		 pathogenic
GRCh38/hg38 12p13.33-q24.33(chr12:121271-133196807)x3 copy number gain See cases [RCV000139555] Chr12:121271..133196807 [GRCh38]
Chr12:282465..133773393 [GRCh37]
Chr12:100698..132283466 [NCBI36]
Chr12:12p13.33-q24.33		 pathogenic
GRCh38/hg38 12q21.2-21.31(chr12:76566873-82021089)x1 copy number loss See cases [RCV000141023] Chr12:76566873..82021089 [GRCh38]
Chr12:76960653..82414868 [GRCh37]
Chr12:75484784..80938999 [NCBI36]
Chr12:12q21.2-21.31		 likely pathogenic
GRCh38/hg38 12q21.1-22(chr12:73485697-92795805)x1 copy number loss See cases [RCV000143099] Chr12:73485697..92795805 [GRCh38]
Chr12:73879477..93189581 [GRCh37]
Chr12:72165744..91713712 [NCBI36]
Chr12:12q21.1-22		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:93
Interacting mature miRNAs:97
Transcripts:ENST00000550506
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage
High
Medium 1
Low 6 1 70 1
Below cutoff 41 36 31 6 38 4 125 43 181 14 289 32 2 22 95

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000550506
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1281,953,719 - 81,993,136 (+)Ensembl
RefSeq Acc Id: ENST00000660121
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1281,953,760 - 81,993,133 (+)Ensembl
RefSeq Acc Id: NR_110089
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381281,953,719 - 81,993,133 (+)NCBI
CHM1_11282,313,385 - 82,352,798 (+)NCBI
T2T-CHM13v2.01281,933,204 - 81,972,616 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LINC02426 COSMIC
Ensembl Genes ENSG00000257747 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000550506 ENTREZGENE
GTEx ENSG00000257747 GTEx
HGNC ID HGNC:53357 ENTREZGENE
Human Proteome Map LINC02426 Human Proteome Map
NCBI Gene LINC02426 ENTREZGENE
RNAcentral URS000043B54C RNACentral